Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 294 of 345
Found at i:88431220 original size:80 final size:80
Alignment explanation
Indices: 88431136--88431284 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
88431126 TATGGTAACC
* * * *
88431136 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
88431200 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
88431216 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
88431281 CCGG
66 CCGG
88431285 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:88431226 original size:40 final size:38
Alignment explanation
Indices: 88431177--88431284 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
88431167 ATCACGATTT
*
88431177 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
88431217 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
88431257 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
88431285 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:88434098 original size:21 final size:21
Alignment explanation
Indices: 88434072--88434118 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
88434062 AAGTGTACTG
* * *
88434072 TACTGGCAGCTTTGCTGCAAT
1 TACTGGCAGCTATACTACAAT
88434093 TACTGGCAGCTATACTACAAT
1 TACTGGCAGCTATACTACAAT
88434114 TACTG
1 TACTG
88434119 AATAATGTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (21 bp):
TACTGGCAGCTATACTACAAT
Found at i:88434296 original size:34 final size:34
Alignment explanation
Indices: 88434252--88434321 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
88434242 TTTTTGTTAT
* * *
88434252 TGTTACTGTAACGGGCTAAGGCCCATATTGATAC
1 TGTTACTGTAACGGACTAAGGCCCACACTGATAC
* *
88434286 TGTTATTGTAATGGACTAAGGCCCACACTGATAC
1 TGTTACTGTAACGGACTAAGGCCCACACTGATAC
88434320 TG
1 TG
88434322 GATTGTTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (34 bp):
TGTTACTGTAACGGACTAAGGCCCACACTGATAC
Found at i:88436954 original size:39 final size:40
Alignment explanation
Indices: 88436846--88437035 Score: 203
Period size: 40 Copynumber: 4.8 Consensus size: 40
88436836 GGATATAACG
* *
88436846 ACTCGCTCAAATGCCTTCGGGAC-AAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* * *
88436885 A-TCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
88436924 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * * *
88436963 ACTCGCACGAACGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
*
88437003 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
88437036 CATCATTCAA
Statistics
Matches: 127, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
38 21 0.17
39 44 0.35
40 52 0.41
41 10 0.08
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:88444922 original size:79 final size:81
Alignment explanation
Indices: 88444775--88444992 Score: 234
Period size: 79 Copynumber: 2.7 Consensus size: 81
88444765 GAATCACGTA
*** * **
88444775 CCTTCGGAAT-TTAA-CCGGATATAACGACTCGCTCAAATGCCTTCGGGACAAAGCCCGG-TTAT
1 CCTTCGG-ATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAT
*
88444837 AGTAACTCGCACGAATG
65 AGTAACTCGCACGAACG
* *
88444854 CCTTCAGGA-CTTAACCCGGGTTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATT-T
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAT
*
88444916 ATTAACTCGCACGAACG
65 AGTAACTCGCACGAACG
** * *
88444933 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
88444993 CATCATTCAA
Statistics
Matches: 116, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
78 3 0.03
79 63 0.54
80 50 0.43
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATA
GTAACTCGCACGAACG
Found at i:88444992 original size:40 final size:39
Alignment explanation
Indices: 88444801--88444992 Score: 181
Period size: 40 Copynumber: 4.8 Consensus size: 39
88444791 GGATATAACG
* ** *
88444801 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGGTTATAGTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * * *
88444841 ACTCGCACGAATGCCTTCAGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* *
88444881 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * *
88444920 ACTCGCACGAACGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
88444960 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
88444993 CATCATTCAA
Statistics
Matches: 124, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 81 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:88453830 original size:21 final size:21
Alignment explanation
Indices: 88453804--88453849 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
88453794 TTGTTGGTCG
**
88453804 AATTTTATATTTTTGTATATA
1 AATTTTATATTTTCATATATA
88453825 AATTTTATATTTTCATATATA
1 AATTTTATATTTTCATATATA
88453846 AATT
1 AATT
88453850 ATAAATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
AATTTTATATTTTCATATATA
Found at i:88453861 original size:23 final size:21
Alignment explanation
Indices: 88453819--88453864 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
88453809 TATATTTTTG
* *
88453819 TATATAAATTTTATATTTTCA
1 TATATAAATTTAATAATTTCA
88453840 TATATAAATTATAAATAATTTCA
1 TATATAAATT-T-AATAATTTCA
88453863 TA
1 TA
88453865 AATTAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 1 0.05
23 10 0.48
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (21 bp):
TATATAAATTTAATAATTTCA
Found at i:88454980 original size:19 final size:19
Alignment explanation
Indices: 88454956--88455006 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
88454946 TTCGAAAGCG
88454956 GATCTCCTTCAAGATTGAA
1 GATCTCCTTCAAGATTGAA
* *
88454975 GATCTCCTTTAAGTTTGAA
1 GATCTCCTTCAAGATTGAA
88454994 GATCTCCATTCAA
1 GATCTCC-TTCAA
88455007 TTTCTTTAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 24 0.86
20 4 0.14
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (19 bp):
GATCTCCTTCAAGATTGAA
Found at i:88456573 original size:40 final size:40
Alignment explanation
Indices: 88456529--88456637 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 40
88456519 AGCTTTAGTG
* *
88456529 GCATTAACGGTGCTTTTTGAAAAACGCCGCTATAGATCAA
1 GCATTAGCGGTGCTTTTTAAAAAACGCCGCTATAGATCAA
* * * *
88456569 GCATTAGCGGCGTTTTTTAAAAAACGCCGCTATAGGTCGA
1 GCATTAGCGGTGCTTTTTAAAAAACGCCGCTATAGATCAA
88456609 -CTATTAGCGGTGCTTTTTTAAAAAACGCC
1 GC-ATTAGCGGTGC-TTTTTAAAAAACGCC
88456638 ACAAAAAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
39 1 0.02
40 43 0.73
41 15 0.25
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (40 bp):
GCATTAGCGGTGCTTTTTAAAAAACGCCGCTATAGATCAA
Found at i:88456671 original size:155 final size:154
Alignment explanation
Indices: 88456395--88456769 Score: 545
Period size: 155 Copynumber: 2.4 Consensus size: 154
88456385 CACTAGGACC
* * * * ** *
88456395 AAAAATGCCGCTATAGATCGAGCATTAGTGGTGCTTTTT-GAAAACGCTACTATAGGTTGACCAT
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGGTCGACCAT
* * *
88456459 TAGCGGTGCTTTTTAAAAAATGCCATAAAAAAATTAAGCACAATGCCATCGTTTTATGTGAGCTT
66 TAGCGGTGCTTTTTAAAAAACGCCACAAAAAAATTAAGCACAATGCCATCGTTTTATGTGAACTT
*
88456524 TAGTGGCATTAACGGTGCTTTTTG
131 TAGTGGCATTAACGGCGCTTTTTG
* * *
88456548 AAAAACGCCGCTATAGATCAAGCATTAGCGGCGTTTTTTAAAAAACGCCGCTATAGGTCGACTAT
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGGTCGACCAT
*
88456613 TAGCGGTGCTTTTTTAAAAAACGCCACAAAAAAATTAAGCACAATGCCGTCGTTTTATGTGAACT
66 TAGCGGTGC-TTTTTAAAAAACGCCACAAAAAAATTAAGCACAATGCCATCGTTTTATGTGAACT
*
88456678 TTAGTGGCATTAGCGGCGCTTTTTG
130 TTAGTGGCATTAACGGCGCTTTTTG
* * * * *
88456703 AAAAACGCCGCTATAGGTCGACCATTAGCGGCGCTTTTTAAACAACGCCGCTATAGATCGAGCAT
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGGTCGACCAT
88456768 TA
66 TA
88456770 TCGACATTTT
Statistics
Matches: 196, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
153 34 0.17
154 29 0.15
155 133 0.68
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (154 bp):
AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGGTCGACCAT
TAGCGGTGCTTTTTAAAAAACGCCACAAAAAAATTAAGCACAATGCCATCGTTTTATGTGAACTT
TAGTGGCATTAACGGCGCTTTTTG
Found at i:88456740 original size:40 final size:40
Alignment explanation
Indices: 88456685--88456769 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
88456675 ACTTTAGTGG
*
88456685 CATTAGCGGCGCTTTTTGAAA-AACGCCGCTATAGGTCGAC
1 CATTAGCGGCGCTTTTT-AAACAACGCCGCTATAGATCGAC
*
88456725 CATTAGCGGCGCTTTTTAAACAACGCCGCTATAGATCGAG
1 CATTAGCGGCGCTTTTTAAACAACGCCGCTATAGATCGAC
88456765 CATTA
1 CATTA
88456770 TCGACATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
39 3 0.07
40 39 0.93
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
CATTAGCGGCGCTTTTTAAACAACGCCGCTATAGATCGAC
Found at i:88456820 original size:14 final size:14
Alignment explanation
Indices: 88456801--88456882 Score: 69
Period size: 14 Copynumber: 5.8 Consensus size: 14
88456791 TATGGGTTAT
88456801 GGTTTAAGGTTTAG
1 GGTTTAAGGTTTAG
*
88456815 GATTT-AGAGTTTAG
1 GGTTTAAG-GTTTAG
* *
88456829 GGCTT-AGAGTTTAT
1 GGTTTAAG-GTTTAG
**
88456843 GGTTTGGGGTTTAG
1 GGTTTAAGGTTTAG
*
88456857 GGTTTAAGGTTTGG
1 GGTTTAAGGTTTAG
88456871 GGTTTAGAGGTT
1 GGTTTA-AGGTT
88456883 GGGTTTAGGG
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
13 2 0.04
14 47 0.85
15 6 0.11
ACGTcount: A:0.18, C:0.01, G:0.38, T:0.43
Consensus pattern (14 bp):
GGTTTAAGGTTTAG
Found at i:88456841 original size:21 final size:21
Alignment explanation
Indices: 88456802--88456892 Score: 64
Period size: 21 Copynumber: 4.4 Consensus size: 21
88456792 ATGGGTTATG
*
88456802 GTTTAAGGTTTAG-GATTTAGA
1 GTTTAGGGTTTAGAG-TTTAGA
*
88456823 GTTTAGGGCTTAGAGTTTATG-
1 GTTTAGGGTTTAGAGTTTA-GA
* *
88456844 GTTTGGGGTTTAGGGTTTA-A
1 GTTTAGGGTTTAGAGTTTAGA
* * *
88456864 GGTTTGGGGTTTAGAGGTT-GG
1 -GTTTAGGGTTTAGAGTTTAGA
88456885 GTTTAGGG
1 GTTTAGGG
88456893 GTAAATATGG
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
20 7 0.12
21 47 0.84
22 2 0.04
ACGTcount: A:0.18, C:0.01, G:0.40, T:0.42
Consensus pattern (21 bp):
GTTTAGGGTTTAGAGTTTAGA
Found at i:88456893 original size:21 final size:21
Alignment explanation
Indices: 88456808--88456882 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
88456798 TATGGTTTAA
* *
88456808 GGTTTAGGATTT-AGAGTTTAG
1 GGTTTAGGGTTTAAG-GTTTGG
* * *
88456829 GGCTTAGAGTTTATGGTTTGG
1 GGTTTAGGGTTTAAGGTTTGG
88456850 GGTTTAGGGTTTAAGGTTTGG
1 GGTTTAGGGTTTAAGGTTTGG
88456871 GGTTTAGAGGTT
1 GGTTTAG-GGTT
88456883 GGGTTTAGGG
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 39 0.89
22 5 0.11
ACGTcount: A:0.17, C:0.01, G:0.39, T:0.43
Consensus pattern (21 bp):
GGTTTAGGGTTTAAGGTTTGG
Found at i:88457521 original size:22 final size:22
Alignment explanation
Indices: 88457489--88457535 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
88457479 ATGTTTATTA
88457489 TTTTGGGTTTA-GAGTTTTTGGT
1 TTTTGGGTTTATG-GTTTTTGGT
* *
88457511 TTTTGGTTTTATGGTTTTTTGT
1 TTTTGGGTTTATGGTTTTTGGT
88457533 TTT
1 TTT
88457536 ATAGTTAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.06, C:0.00, G:0.26, T:0.68
Consensus pattern (22 bp):
TTTTGGGTTTATGGTTTTTGGT
Found at i:88457525 original size:8 final size:7
Alignment explanation
Indices: 88457502--88457535 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
88457492 TGGGTTTAGA
88457502 GTTTTTG
1 GTTTTTG
88457509 GTTTTTG
1 GTTTTTG
88457516 GTTTTATG
1 GTTTT-TG
*
88457524 GTTTTTT
1 GTTTTTG
88457531 GTTTT
1 GTTTT
88457536 ATAGTTAGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.03, C:0.00, G:0.24, T:0.74
Consensus pattern (7 bp):
GTTTTTG
Found at i:88457525 original size:15 final size:15
Alignment explanation
Indices: 88457502--88457537 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
88457492 TGGGTTTAGA
88457502 GTTTT-TGGTTTTTG
1 GTTTTATGGTTTTTG
*
88457516 GTTTTATGGTTTTTT
1 GTTTTATGGTTTTTG
88457531 GTTTTAT
1 GTTTTAT
88457538 AGTTAGGGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.06, C:0.00, G:0.22, T:0.72
Consensus pattern (15 bp):
GTTTTATGGTTTTTG
Found at i:88461191 original size:35 final size:34
Alignment explanation
Indices: 88461152--88461217 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
88461142 TAATTGTGTT
*
88461152 ATTAATTTATTAT-TTTAGATTCTAAATTTAAACTC
1 ATTAATTT-TTATATTTAG-TTCTAAAGTTAAACTC
*
88461187 ATTAATTTTTATATTTAGTTTTAAAGTTAAA
1 ATTAATTTTTATATTTAGTTCTAAAGTTAAA
88461218 ATTTTAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (34 bp):
ATTAATTTTTATATTTAGTTCTAAAGTTAAACTC
Found at i:88461474 original size:43 final size:43
Alignment explanation
Indices: 88461373--88461548 Score: 219
Period size: 43 Copynumber: 4.1 Consensus size: 43
88461363 CTTTTTTAGT
* *
88461373 GGCGTTTATGGGAAAAGCGTCGCTAAAGGTC-TGTTCTATAGC
1 GGCGTTTATGGGAAAAGCGCCGCTAAAGGCCATGTTCTATAGC
* *
88461415 GGCGTTTATGGAAAAAGCGCCGCTAAAGGCCATGTTCTTTAGC
1 GGCGTTTATGGGAAAAGCGCCGCTAAAGGCCATGTTCTATAGC
* * * *
88461458 GACGTTTGTGGGAAAAGCGCCGCTAAAGGCCATATTCTTTAGC
1 GGCGTTTATGGGAAAAGCGCCGCTAAAGGCCATGTTCTATAGC
* * * * * *
88461501 GGTGTTTGTTGTAAAAACGCCGCTAAAGGTCATGTTCTATAGC
1 GGCGTTTATGGGAAAAGCGCCGCTAAAGGCCATGTTCTATAGC
88461544 GGCGT
1 GGCGT
88461549 ATTTTGCGGC
Statistics
Matches: 116, Mismatches: 17, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
42 28 0.24
43 88 0.76
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
GGCGTTTATGGGAAAAGCGCCGCTAAAGGCCATGTTCTATAGC
Found at i:88464535 original size:79 final size:82
Alignment explanation
Indices: 88464395--88464579 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
88464385 TCGAATGATG
* * *
88464395 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
88464459 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
88464475 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
88464537 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
88464555 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88464580 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:88464587 original size:40 final size:40
Alignment explanation
Indices: 88464396--88464587 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
88464386 CGAATGATGT
* * * * *
88464396 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
88464436 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
88464476 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
88464515 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
88464555 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
88464588 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:88464610 original size:79 final size:79
Alignment explanation
Indices: 88464395--88464612 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
88464385 TCGAATGATG
* * * * ** *
88464395 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
88464458 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
88464475 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
88464540 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
88464555 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
88464613 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:88472565 original size:79 final size:82
Alignment explanation
Indices: 88472425--88472609 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
88472415 TCGAATGATG
* * *
88472425 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
88472489 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
88472505 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
88472567 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
88472585 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88472610 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:88472617 original size:40 final size:40
Alignment explanation
Indices: 88472426--88472617 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
88472416 CGAATGATGT
* * * * *
88472426 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
88472466 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
88472506 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
88472545 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
88472585 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
88472618 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:88472640 original size:79 final size:79
Alignment explanation
Indices: 88472425--88472642 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
88472415 TCGAATGATG
* * * * ** *
88472425 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
88472488 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
88472505 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
88472570 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
88472585 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
88472643 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:88476367 original size:21 final size:21
Alignment explanation
Indices: 88476341--88476387 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
88476331 AAGTGTACTG
88476341 TACTGGCAGCTCTGCTACAAT
1 TACTGGCAGCTCTGCTACAAT
* *
88476362 TACTGGCAGCTTTGCTGCAAT
1 TACTGGCAGCTCTGCTACAAT
88476383 TACTG
1 TACTG
88476388 AATAATGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (21 bp):
TACTGGCAGCTCTGCTACAAT
Found at i:88476565 original size:34 final size:34
Alignment explanation
Indices: 88476521--88476590 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
88476511 TTTCTATTAT
* *
88476521 TGTTACTGTAATAGG-CTAAGGCCCATATTGATAC
1 TGTTACTGTAAT-GGACTAAGGCCCACACTGATAC
*
88476555 TGTTATTGTAATGGACTAAGGCCCACACTGATAC
1 TGTTACTGTAATGGACTAAGGCCCACACTGATAC
88476589 TG
1 TG
88476591 GATTGTTACT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 2 0.06
34 30 0.94
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (34 bp):
TGTTACTGTAATGGACTAAGGCCCACACTGATAC
Found at i:88484235 original size:34 final size:34
Alignment explanation
Indices: 88484191--88484260 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
88484181 TTTCTGTTAT
88484191 TGTTACTGTAATGGGCTAAGGCCCACACTGATAC
1 TGTTACTGTAATGGGCTAAGGCCCACACTGATAC
*
88484225 TGTTATTGTAATGGGCTAAGGCCCACACTGATAC
1 TGTTACTGTAATGGGCTAAGGCCCACACTGATAC
88484259 TG
1 TG
88484261 GACTGTTACT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (34 bp):
TGTTACTGTAATGGGCTAAGGCCCACACTGATAC
Found at i:88490759 original size:21 final size:21
Alignment explanation
Indices: 88490734--88490779 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
88490724 TTGTTGGTCG
88490734 AATTTTATATTTTCATATATA
1 AATTTTATATTTTCATATATA
88490755 AATTTTATATTTTCATATATA
1 AATTTTATATTTTCATATATA
88490776 AATT
1 AATT
88490780 ATAAATAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
AATTTTATATTTTCATATATA
Found at i:88490791 original size:23 final size:21
Alignment explanation
Indices: 88490734--88490794 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
88490724 TTGTTGGTCG
* *
88490734 AATTTTATATTTTCATATATA
1 AATTTAATAATTTCATATATA
* *
88490755 AATTTTATATTTTCATATATA
1 AATTTAATAATTTCATATATA
88490776 AATTATAAATAATTTCATA
1 AATT-T-AATAATTTCATA
88490795 AATTAGTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 25 0.69
22 1 0.03
23 10 0.28
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTTAATAATTTCATATATA
Found at i:88491887 original size:19 final size:19
Alignment explanation
Indices: 88491863--88491913 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
88491853 TTCAAAAGCG
88491863 GATCTCCTTCAAGATTGAA
1 GATCTCCTTCAAGATTGAA
*
88491882 GATCTCATTCAAGATTGAA
1 GATCTCCTTCAAGATTGAA
*
88491901 TATCTCCATTCAA
1 GATCTCC-TTCAA
88491914 TTTCTTTAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 23 0.82
20 5 0.18
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (19 bp):
GATCTCCTTCAAGATTGAA
Found at i:88493356 original size:40 final size:40
Alignment explanation
Indices: 88493312--88493387 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
88493302 AAAAACGCCG
* * *
88493312 CTATAGATCGAGCATTAGTGGCACTTTTTGAAAAATGCTA
1 CTATAGATCGACCATTAGAGGCACTTTTTAAAAAATGCTA
* * *
88493352 CTATAGGTTGACCATTAGAGGCGCTTTTTAAAAAAT
1 CTATAGATCGACCATTAGAGGCACTTTTTAAAAAAT
88493388 ACCGTAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (40 bp):
CTATAGATCGACCATTAGAGGCACTTTTTAAAAAATGCTA
Found at i:88493547 original size:115 final size:114
Alignment explanation
Indices: 88493335--88493619 Score: 417
Period size: 115 Copynumber: 2.5 Consensus size: 114
88493325 ATTAGTGGCA
** * ** **
88493335 CTTTTTGAAAAATGCTACTATAGGTTGACCATTAGAGGCGCTTTTTAAAAAATACCGTAAAAAAA
1 CTTTTTGAAAAATGCCGCTATAGGTCGACCATTAGAGGCGCTTTTTAAAAAACGCCACAAAAAAA
**
88493400 TTAAGCACAACGCCGTCGTTTTATGTGAGCTTTAGTGGCATTAGCGGTG
66 TTAAGCACAACGCCGTCGTTTTATGTGAGCTTTAGTGGCATTAGCGACG
* * * *
88493449 CTTTTTGAAAAACGCCGCTATAGGTCGACTATTAGCGGTGCTTTTTTAAAAAACGCCACAAAAAA
1 CTTTTTGAAAAATGCCGCTATAGGTCGACCATTAGAGGCGC-TTTTTAAAAAACGCCACAAAAAA
*
88493514 ATTAAGCACAATGCCGTCGTTTTATGTGAGCTTTAGTGGCATTAGCGACG
65 ATTAAGCACAACGCCGTCGTTTTATGTGAGCTTTAGTGGCATTAGCGACG
* *
88493564 CTTTTTGAAAAATGCCGCTATAGGTCGACCATTAGTGGCGCTTTTTAAACAACGCC
1 CTTTTTGAAAAATGCCGCTATAGGTCGACCATTAGAGGCGCTTTTTAAAAAACGCC
88493620 GCTATAGATC
Statistics
Matches: 151, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
114 48 0.32
115 103 0.68
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (114 bp):
CTTTTTGAAAAATGCCGCTATAGGTCGACCATTAGAGGCGCTTTTTAAAAAACGCCACAAAAAAA
TTAAGCACAACGCCGTCGTTTTATGTGAGCTTTAGTGGCATTAGCGACG
Found at i:88493608 original size:40 final size:40
Alignment explanation
Indices: 88493553--88493651 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
88493543 GCTTTAGTGG
* *
88493553 CATTAGCGACGCTTTTTGAAA-AATGCCGCTATAGGTCGAC
1 CATTAGCGACGCTTTTT-AAACAACGCCGCTATAGATCGAC
* * *
88493593 CATTAGTGGCGCTTTTTAAACAACGCCGCTATAGATCGAG
1 CATTAGCGACGCTTTTTAAACAACGCCGCTATAGATCGAC
*
88493633 CATTAGCGAC-ATTTTTAAA
1 CATTAGCGACGCTTTTTAAA
88493652 TTTAGTTTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
39 11 0.22
40 39 0.78
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (40 bp):
CATTAGCGACGCTTTTTAAACAACGCCGCTATAGATCGAC
Found at i:88493715 original size:21 final size:20
Alignment explanation
Indices: 88493665--88493745 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 20
88493655 AGTTTATGGG
*
88493665 TTATGGTTTAAGGTTTAGGAT
1 TTATGGTTTAGGGTTTAGG-T
*
88493686 TTA-GAGTTTAGGGCTTAGAGT
1 TTATG-GTTTAGGGTTTAG-GT
*
88493707 TTATGGTTTGGGGTTTAGGGT
1 TTATGGTTTAGGGTTTA-GGT
*
88493728 TTAAGGTTT-GGGATTTAG
1 TTATGGTTTAGGG-TTTAG
88493746 AGGTTGGGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
20 5 0.10
21 42 0.84
22 3 0.06
ACGTcount: A:0.20, C:0.01, G:0.35, T:0.44
Consensus pattern (20 bp):
TTATGGTTTAGGGTTTAGGT
Found at i:88494282 original size:43 final size:42
Alignment explanation
Indices: 88494252--88494374 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
88494242 GGGATATGGG
88494252 TTATGATATAATGTTTATTATTTTGGGGTTTAGGGTTTAGGGT
1 TTATGATATAATGTTTATTATTTT-GGGTTTAGGGTTTAGGGT
* * ** **
88494295 TTATGATTTAAGGTTTAATGCTCAT-GGTTTAGGGGTTTAGGGT
1 TTATGATATAATGTTT-ATTATTTTGGGTTTA-GGGTTTAGGGT
*
88494338 TTATGATATAATGTTTATTATTTTGGGTTTAGAGTTT
1 TTATGATATAATGTTTATTATTTTGGGTTTAGGGTTT
88494375 TTGATTTAGG
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
42 15 0.23
43 45 0.70
44 4 0.06
ACGTcount: A:0.22, C:0.02, G:0.26, T:0.50
Consensus pattern (42 bp):
TTATGATATAATGTTTATTATTTTGGGTTTAGGGTTTAGGGT
Found at i:88494561 original size:2 final size:2
Alignment explanation
Indices: 88494554--88494590 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
88494544 ATCCCTTGTA
88494554 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
88494591 GGGTTTAGGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:88499114 original size:3 final size:3
Alignment explanation
Indices: 88499106--88499159 Score: 69
Period size: 3 Copynumber: 18.3 Consensus size: 3
88499096 TTAGCTCTAG
88499106 TAT TAT TAT TAT TAT TAAT TAT T-T T-T TATT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
88499150 TAT TAT TAT T
1 TAT TAT TAT T
88499160 GGTTTTACTG
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 6 0.13
3 35 0.74
4 6 0.13
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:88499157 original size:14 final size:14
Alignment explanation
Indices: 88499106--88499159 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 14
88499096 TTAGCTCTAG
88499106 TATTATTATTATTAT
1 TATTATTATTATT-T
*
88499121 TAATTATT-TTTTATT
1 T-ATTATTATTAT-TT
88499136 TATTATTATTATTT
1 TATTATTATTATTT
88499150 TATTATTATT
1 TATTATTATT
88499160 GGTTTTACTG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 18 0.53
15 9 0.26
16 7 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTATTATTATTT
Found at i:88499166 original size:33 final size:31
Alignment explanation
Indices: 88499106--88499189 Score: 89
Period size: 33 Copynumber: 2.6 Consensus size: 31
88499096 TTAGCTCTAG
* *
88499106 TATTATTATTATTATTAATTATTTTTTATTTAT
1 TATTATTATT-TTATT-ATTATTTTTTACTGAT
88499139 TATTATTATTTTATTATTATTGGTTTTACTGAT
1 TATTATTATTTTATTATTATT--TTTTACTGAT
*
88499172 T-TTAGTTATTTTTTTATT
1 TATTA-TTATTTTATTATT
88499190 CATTCTTGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
31 6 0.13
32 8 0.18
33 31 0.69
ACGTcount: A:0.25, C:0.01, G:0.05, T:0.69
Consensus pattern (31 bp):
TATTATTATTTTATTATTATTTTTTACTGAT
Found at i:88500787 original size:6 final size:6
Alignment explanation
Indices: 88500764--88500811 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
88500754 AGTCCATTTG
* *
88500764 TTTTATA TTTTATA TTTTTA TTTTTA TTTTTA TGTTTA TTGTTA TTTT
1 TTTT-TA TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
88500812 CTTAGATTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
6 26 0.70
7 11 0.30
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:88505143 original size:20 final size:20
Alignment explanation
Indices: 88505115--88505154 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
88505105 CAACAATATA
*
88505115 TTATCAATTAGTGAATATTT
1 TTATAAATTAGTGAATATTT
88505135 TTATAAATTAGTGAATATTT
1 TTATAAATTAGTGAATATTT
88505155 GACCATATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.50
Consensus pattern (20 bp):
TTATAAATTAGTGAATATTT
Found at i:88505786 original size:27 final size:26
Alignment explanation
Indices: 88505747--88505820 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 26
88505737 AATTAAATAA
88505747 TAAATTTATTTCATTTCATTTCAACTTT
1 TAAA-TTATTTCATTTCATTTCAA-TTT
88505775 TAAATTATTTCATTTCATTTCAATTT
1 TAAATTATTTCATTTCATTTCAATTT
* *
88505801 TTAATT-TTTAATTT-ATTTCA
1 TAAATTATTTCATTTCATTTCA
88505821 TTTCATTTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.14
25 7 0.16
26 8 0.18
27 19 0.43
28 4 0.09
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (26 bp):
TAAATTATTTCATTTCATTTCAATTT
Found at i:88505817 original size:34 final size:32
Alignment explanation
Indices: 88505750--88505959 Score: 184
Period size: 34 Copynumber: 6.6 Consensus size: 32
88505740 TAAATAATAA
* *
88505750 ATTT-ATTTCATTTCATTTCAACTTTTAAATT
1 ATTTCATTTCATTTCATTTCAATTTTTAATTT
*
88505781 ATTTCATTTCATTTCAATTTTTAATTTTTAATTT
1 ATTTCATTTCATTTC-A-TTTCAATTTTTAATTT
* * *
88505815 ATTTCATTTCATTTCATTTGAAATTTTCATTT
1 ATTTCATTTCATTTCATTTCAATTTTTAATTT
**
88505847 CATTATCAACTCATTTCATTTCAATTTTT-ATTT
1 -ATT-TCATTTCATTTCATTTCAATTTTTAATTT
** *
88505880 ATTTCATTTCAATTTTTTGTTC-A--TTTCATTT
1 ATTTCATTTC-ATTTCAT-TTCAATTTTTAATTT
*
88505911 CAATT--TTTCATTTCATTTC-ATTTTTAATTT
1 -ATTTCATTTCATTTCATTTCAATTTTTAATTT
*
88505941 ATTTCATTTCATTTAATTT
1 ATTTCATTTCATTTCATTT
88505960 ATTTTAAATT
Statistics
Matches: 146, Mismatches: 20, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
28 4 0.03
29 8 0.05
30 14 0.10
31 25 0.17
32 35 0.24
33 12 0.08
34 48 0.33
ACGTcount: A:0.25, C:0.13, G:0.01, T:0.61
Consensus pattern (32 bp):
ATTTCATTTCATTTCATTTCAATTTTTAATTT
Found at i:88505825 original size:39 final size:39
Alignment explanation
Indices: 88505781--88505959 Score: 129
Period size: 43 Copynumber: 4.5 Consensus size: 39
88505771 CTTTTAAATT
*
88505781 ATTTCATTTCATTTCAATTTTTAATTTTTAATTTATTTC
1 ATTTCATTTCATTTCAATTTTTAATTTTTCATTTATTTC
* * *
88505820 ATTTCATTTCATTTGAAATTTTCA--TTTCA-TTA--TC
1 ATTTCATTTCATTTCAATTTTTAATTTTTCATTTATTTC
** * *
88505854 AACTCATTTCATTTCAATTTTTATTTATTTCATTTCAATTTT
1 ATTTCATTTCATTTCAATTTTTAATT-TTTCATTT--ATTTC
* *
88505896 TTGTTCATTTCATTTCAATTTTTCATTTCATTTCATTTTTAATTT-
1 AT-TTCATTTCATTTCAATTTTT-AATT--TTTCA--TTT-ATTTC
88505941 ATTTCATTTCATTT-AATTT
1 ATTTCATTTCATTTCAATTT
88505960 ATTTTAAATT
Statistics
Matches: 112, Mismatches: 15, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
34 20 0.18
36 3 0.03
37 9 0.08
38 2 0.02
39 21 0.19
40 1 0.01
42 1 0.01
43 24 0.21
44 16 0.14
45 7 0.06
46 5 0.04
47 3 0.03
ACGTcount: A:0.25, C:0.13, G:0.01, T:0.61
Consensus pattern (39 bp):
ATTTCATTTCATTTCAATTTTTAATTTTTCATTTATTTC
Found at i:88505862 original size:16 final size:15
Alignment explanation
Indices: 88505841--88505870 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
88505831 TTTGAAATTT
88505841 TCATTTCATTATCAAC
1 TCATTTCATT-TCAAC
88505857 TCATTTCATTTCAA
1 TCATTTCATTTCAA
88505871 TTTTTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (15 bp):
TCATTTCATTTCAAC
Found at i:88505877 original size:61 final size:58
Alignment explanation
Indices: 88505751--88505956 Score: 176
Period size: 61 Copynumber: 3.4 Consensus size: 58
88505741 AAATAATAAA
* * *
88505751 TTTATTTCATTTCATTTCAACTTTTAAATTATTTCATTTCATTTCAAT-TTTTAATTTTTAA--
1 TTTATTT-ATTTCATTTCAA--TTTAAA-T-TTTCATTTCATTTCAATCATTTCA-TTTCAATT
88505812 TTTATTTCATTTCATTTC-ATTTGAAATTTTCATTTCATTATCAACTCATTTCATTTCAATT
1 TTTATTT-ATTTCATTTCAATTT-AAATTTTCATTTCATT-TCAA-TCATTTCATTTCAATT
*
88505873 TTTATTTATTTCATTTCAATTT--TTTGTTCATTTCATTTCAATTTTTCATTTCATTTC-ATT
1 TTTATTTATTTCATTTCAATTTAAATT-TTCATTTCATTTCAA----TCATTTCATTTCAATT
88505933 TTTAATTTATTTCATTTC-ATTTAA
1 TTT-ATTTATTTCATTTCAATTTAA
88505957 TTTATTTTAA
Statistics
Matches: 126, Mismatches: 5, Indels: 27
0.80 0.03 0.17
Matches are distributed among these distances:
57 12 0.10
58 14 0.11
59 20 0.16
60 25 0.20
61 55 0.44
ACGTcount: A:0.25, C:0.13, G:0.01, T:0.61
Consensus pattern (58 bp):
TTTATTTATTTCATTTCAATTTAAATTTTCATTTCATTTCAATCATTTCATTTCAATT
Found at i:88505883 original size:21 final size:21
Alignment explanation
Indices: 88505859--88505963 Score: 116
Period size: 21 Copynumber: 5.2 Consensus size: 21
88505849 TTATCAACTC
88505859 ATTTCATTTCAATTTTTATTT
1 ATTTCATTTCAATTTTTATTT
88505880 ATTTCATTTCAATTTTT-TGTT
1 ATTTCATTTCAATTTTTAT-TT
*
88505901 CATTTCATTTCAA--TTT-TTC
1 -ATTTCATTTCAATTTTTATTT
88505920 ATTTCATTTC-ATTTTTAATTT
1 ATTTCATTTCAATTTTT-ATTT
*
88505941 ATTTCATTTC-A-TTTAATTT
1 ATTTCATTTCAATTTTTATTT
88505960 ATTT
1 ATTT
88505964 TAAATTTTTA
Statistics
Matches: 75, Mismatches: 3, Indels: 14
0.82 0.03 0.15
Matches are distributed among these distances:
17 1 0.01
18 10 0.13
19 12 0.16
20 8 0.11
21 32 0.43
22 12 0.16
ACGTcount: A:0.23, C:0.11, G:0.01, T:0.65
Consensus pattern (21 bp):
ATTTCATTTCAATTTTTATTT
Found at i:88505894 original size:6 final size:5
Alignment explanation
Indices: 88505750--88505963 Score: 97
Period size: 5 Copynumber: 41.8 Consensus size: 5
88505740 TAAATAATAA
* *
88505750 ATTT- ATTTC ATTTC ATTTC AACTTTTA AATT- ATTTC ATTTC ATTTC
1 ATTTC ATTTC ATTTC ATTTC -A--TTTC ATTTC ATTTC ATTTC ATTTC
* * * *
88505796 AATT- -TTTA ATTTTTA ATTT- ATTTC ATTTC ATTTC ATTTGAA ATTTTC
1 ATTTC ATTTC A--TTTC ATTTC ATTTC ATTTC ATTTC ATTT--C A-TTTC
** *
88505843 ATTTC ATTATC AACTC ATTTC ATTTC AATTTTT ATTT- ATTTC ATTTC
1 ATTTC ATT-TC ATTTC ATTTC ATTTC -A-TTTC ATTTC ATTTC ATTTC
* * * *
88505890 AATTTT TTGTTC ATTTC ATTTC AATT- -TTTC ATTTC ATTTC ATTTTTA
1 -ATTTC AT-TTC ATTTC ATTTC ATTTC ATTTC ATTTC ATTTC A--TTTC
*
88505937 ATTT- ATTTC ATTTC ATTTA ATTT- ATTT
1 ATTTC ATTTC ATTTC ATTTC ATTTC ATTT
88505964 TAAATTTTTA
Statistics
Matches: 166, Mismatches: 20, Indels: 48
0.71 0.09 0.21
Matches are distributed among these distances:
3 4 0.02
4 23 0.14
5 105 0.63
6 14 0.08
7 14 0.08
8 6 0.04
ACGTcount: A:0.25, C:0.13, G:0.01, T:0.61
Consensus pattern (5 bp):
ATTTC
Found at i:88505922 original size:77 final size:73
Alignment explanation
Indices: 88505784--88505927 Score: 198
Period size: 77 Copynumber: 1.9 Consensus size: 73
88505774 TTAAATTATT
*
88505784 TCATTTCATTTCAATTTTTAATTTTTAATTTATTTCATTTCATTTCATTTGAAATTTTCATTTCA
1 TCATTTCATTTCAATTTTTAATTTTTAATTTATTTCATTTCATTTCATTTCAAATTTTCATTTCA
88505849 TTATCAAC
66 TTATCAAC
* * ** *
88505857 TCATTTCATTTCAATTTTTATTTATTTCATTTCAATTTTTTGTTCATTTCATTTCAATTTTTCAT
1 TCATTTCATTTCAATTTTTAATT-TTTAATTT--ATTTCAT-TTCATTTCATTTCAAATTTTCAT
88505922 TTCATT
62 TTCATT
88505928 TCATTTTTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
73 22 0.36
74 7 0.11
76 5 0.08
77 27 0.44
ACGTcount: A:0.24, C:0.14, G:0.01, T:0.60
Consensus pattern (73 bp):
TCATTTCATTTCAATTTTTAATTTTTAATTTATTTCATTTCATTTCATTTCAAATTTTCATTTCA
TTATCAAC
Found at i:88506002 original size:53 final size:54
Alignment explanation
Indices: 88505912--88506017 Score: 146
Period size: 53 Copynumber: 2.0 Consensus size: 54
88505902 ATTTCATTTC
*
88505912 AATTTTTCATTTCATTTCATTTTTAATTTATTTCATTTCATTT-AATTTATTTTA
1 AATTTTTCATTTCACTTCATTTTTAATTTATTTCATTTCATTTCAATTT-TTTTA
**
88505966 AATTTTT-AGTTTCACTTC-TTTTTTTTTTATTTCATTTCATTTCAATTTTTTT
1 AATTTTTCA-TTTCACTTCATTTTTAATTTATTTCATTTCATTTCAATTTTTTT
88506018 CATTTCTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
53 27 0.57
54 20 0.43
ACGTcount: A:0.22, C:0.10, G:0.01, T:0.67
Consensus pattern (54 bp):
AATTTTTCATTTCACTTCATTTTTAATTTATTTCATTTCATTTCAATTTTTTTA
Found at i:88511296 original size:119 final size:120
Alignment explanation
Indices: 88511114--88511336 Score: 319
Period size: 119 Copynumber: 1.9 Consensus size: 120
88511104 TACTCGTTCA
*
88511114 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
88511179 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* **
88511234 AATGCGTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
88511296 ATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
88511337 CATCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
118 4 0.04
119 69 0.75
120 19 0.21
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:88511336 original size:40 final size:40
Alignment explanation
Indices: 88511093--88511336 Score: 309
Period size: 40 Copynumber: 6.1 Consensus size: 40
88511083 CGGAATTTAT
**
88511093 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
88511133 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
88511173 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
88511213 CCGGATTTAGTAACTCGCACCAATGCGTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
88511252 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
88511292 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
88511332 CCGGA
1 CCGGA
88511337 CATCATTCAA
Statistics
Matches: 181, Mismatches: 16, Indels: 14
0.86 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.18
40 135 0.75
41 12 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:88521638 original size:22 final size:22
Alignment explanation
Indices: 88521613--88521681 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
88521603 TTAGTCATCA
**
88521613 TGTCTACGGCATTGAGTTGTCC
1 TGTCTACGGCATTGAGCCGTCC
*
88521635 TGTCTACGACATTGAGCCGTCC
1 TGTCTACGGCATTGAGCCGTCC
* *
88521657 TGTCTATGGAATTGAGCCGTCC
1 TGTCTACGGCATTGAGCCGTCC
88521679 TGT
1 TGT
88521682 TGACTTGGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.16, C:0.25, G:0.26, T:0.33
Consensus pattern (22 bp):
TGTCTACGGCATTGAGCCGTCC
Found at i:88527000 original size:25 final size:24
Alignment explanation
Indices: 88526962--88527018 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
88526952 ATCTCGTTAT
**
88526962 TAGCTCTTATGAGCTTCCCATTATA
1 TAGCTCTTGCGAGCTTCCCATTA-A
*
88526987 TAGTTCTTGCGAGCTTCCCATTAA
1 TAGCTCTTGCGAGCTTCCCATTAA
88527011 TAGCTCTT
1 TAGCTCTT
88527019 CGGAGCATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (24 bp):
TAGCTCTTGCGAGCTTCCCATTAA
Found at i:88527032 original size:24 final size:23
Alignment explanation
Indices: 88526948--88527032 Score: 62
Period size: 24 Copynumber: 3.5 Consensus size: 23
88526938 CAACTTGAAA
* * * *
88526948 GAGCATCTCGTTATTAGCTCTTAT
1 GAGCATCCCATTAATAGCTCTT-G
* *
88526972 GAGCTTCCCATTATATAGTTCTTG
1 GAGCATCCCATTA-ATAGCTCTTG
*
88526996 CGAGCTTCCCATTAATAGCTCTTCG
1 -GAGCATCCCATTAATAGCTCTT-G
*
88527021 GAGCATCTCATT
1 GAGCATCCCATT
88527033 TGGTTGTGAT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
24 28 0.57
25 21 0.43
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (23 bp):
GAGCATCCCATTAATAGCTCTTG
Found at i:88530351 original size:43 final size:44
Alignment explanation
Indices: 88530297--88530446 Score: 186
Period size: 43 Copynumber: 3.5 Consensus size: 44
88530287 TATCATAGGT
* *
88530297 ATGGTTTTACATGTAAAT-AC-ATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTAAATCACAATA-CGATGCCAATGTCCCAGAC
88530340 A-GAGTCTTACATG-AAATCACAATACGATGCCAATGTCCCAGAC
1 ATG-GTCTTACATGTAAATCACAATACGATGCCAATGTCCCAGAC
* * * *
88530383 ATGGTCTTACACGT-AATCTCAATACAATGCCAATGTCCCAAAC
1 ATGGTCTTACATGTAAATCACAATACGATGCCAATGTCCCAGAC
88530426 ATGGTCTTACATGT-AATCACA
1 ATGGTCTTACATGTAAATCACA
88530447 TCTCGATAAC
Statistics
Matches: 94, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
42 5 0.05
43 85 0.90
44 4 0.04
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (44 bp):
ATGGTCTTACATGTAAATCACAATACGATGCCAATGTCCCAGAC
Found at i:88532481 original size:27 final size:27
Alignment explanation
Indices: 88532451--88532627 Score: 219
Period size: 27 Copynumber: 6.6 Consensus size: 27
88532441 AGTACTCCCG
88532451 ATTTATAGAATTACCGTTTTACCCTCA
1 ATTTATAGAATTACCGTTTTACCCTCA
* *
88532478 ATTTATAGAATTATCGTTTTACCCTCG
1 ATTTATAGAATTACCGTTTTACCCTCA
* * *
88532505 ATTTTTAAAATTACCGTTTTACCCTCG
1 ATTTATAGAATTACCGTTTTACCCTCA
* * *
88532532 ATTTACAGAATAACCATTTTACCCTCA
1 ATTTATAGAATTACCGTTTTACCCTCA
* * **
88532559 GTTTACAGAATTACTATTTTACCCTCA
1 ATTTATAGAATTACCGTTTTACCCTCA
*
88532586 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTATAGAATTACCGTTTTACCCTCA
* *
88532613 ATTTACAAAATTACC
1 ATTTATAGAATTACC
88532628 AAAATACCCC
Statistics
Matches: 129, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (27 bp):
ATTTATAGAATTACCGTTTTACCCTCA
Found at i:88532542 original size:81 final size:81
Alignment explanation
Indices: 88532449--88532628 Score: 254
Period size: 81 Copynumber: 2.2 Consensus size: 81
88532439 AAAGTACTCC
* * * * * *
88532449 CGATTTATAGAATTACCGTTTTACCCTCAATTTATAGAATTA-TCGTTTTACCCTCGATTTTTAA
1 CGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACT-ATTTTACCCTCAATTTATAA
88532513 AATTACCGTTTTACCCT
65 AATTACCGTTTTACCCT
* * *
88532530 CGATTTACAGAATAACCATTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCAATTTATAGA
1 CGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACTATTTTACCCTCAATTTATAAA
88532595 ATTACCGTTTTACCCT
66 ATTACCGTTTTACCCT
*
88532611 CGATTTACAAAATTACCA
1 CGATTTACAGAATTACCA
88532629 AAATACCCCT
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
81 86 0.99
82 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (81 bp):
CGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACTATTTTACCCTCAATTTATAAA
ATTACCGTTTTACCCT
Found at i:88532690 original size:27 final size:27
Alignment explanation
Indices: 88532660--88532723 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
88532650 CATGGTTTGC
* *
88532660 AAAATTACTAAAATACCCCTGTAAGGT
1 AAAATTACCAAAATACCCCTATAAGGT
* *
88532687 AAAATTACCGAAATACCCCTATAGGGT
1 AAAATTACCAAAATACCCCTATAAGGT
*
88532714 AGAATTACCA
1 AAAATTACCA
88532724 TTTTGCCCCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.23
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTATAAGGT
Found at i:88536405 original size:27 final size:27
Alignment explanation
Indices: 88536375--88536552 Score: 230
Period size: 27 Copynumber: 6.6 Consensus size: 27
88536365 AGTACTCTCG
*
88536375 ATTTATAGAATTACCGTTTTACCCTCA
1 ATTTATAGAATTACCATTTTACCCTCA
* *
88536402 ATTTACAGAATTATCATTTTACCCTCA
1 ATTTATAGAATTACCATTTTACCCTCA
* ** *
88536429 ATTTATAAAATTACTGTTTTACCCTCG
1 ATTTATAGAATTACCATTTTACCCTCA
*
88536456 ATTTACAGAATTACCATTTTACCCTCA
1 ATTTATAGAATTACCATTTTACCCTCA
* *
88536483 GTTTATAGAATTACTATTTTACCCTCA
1 ATTTATAGAATTACCATTTTACCCTCA
* *
88536510 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTATAGAATTACCATTTTACCCTCA
* *
88536537 ATTTACAAAATTACCA
1 ATTTATAGAATTACCA
88536553 AAATACCCCT
Statistics
Matches: 127, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 127 1.00
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.40
Consensus pattern (27 bp):
ATTTATAGAATTACCATTTTACCCTCA
Found at i:88536466 original size:81 final size:81
Alignment explanation
Indices: 88536371--88536552 Score: 285
Period size: 81 Copynumber: 2.2 Consensus size: 81
88536361 CCAAAGTACT
* *
88536371 CTCGATTTATAGAATTACCGTTTTACCCTCAATTTACAGAATTA-TCATTTTACCCTCAATTTAT
1 CTCGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACT-ATTTTACCCTCAATTTAT
*
88536435 AAAATTACTGTTTTACC
65 AAAATTACCGTTTTACC
* *
88536452 CTCGATTTACAGAATTACCATTTTACCCTCAGTTTATAGAATTACTATTTTACCCTCAATTTATA
1 CTCGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACTATTTTACCCTCAATTTATA
*
88536517 GAATTACCGTTTTACC
66 AAATTACCGTTTTACC
*
88536533 CTCGATTTACAAAATTACCA
1 CTCGATTTACAGAATTACCA
88536553 AAATACCCCT
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
81 92 0.99
82 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (81 bp):
CTCGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACTATTTTACCCTCAATTTATA
AAATTACCGTTTTACC
Found at i:88536559 original size:27 final size:27
Alignment explanation
Indices: 88536529--88536615 Score: 106
Period size: 27 Copynumber: 3.2 Consensus size: 27
88536519 ATTACCGTTT
* *
88536529 TACCCTCGATTTACAAAATTACCAAAA
1 TACCCTCGGTTTGCAAAATTACCAAAA
*
88536556 TACCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GGTTTGCAAAATTACCAAAA
*
88536583 TACCCAT-GGTTTGCAAAATTACTAAAA
1 TACCC-TCGGTTTGCAAAATTACCAAAA
88536610 TACCCT
1 TACCCT
88536616 TGTAGGTAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
26 2 0.04
27 50 0.96
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (27 bp):
TACCCTCGGTTTGCAAAATTACCAAAA
Found at i:88536576 original size:81 final size:81
Alignment explanation
Indices: 88536394--88536577 Score: 228
Period size: 81 Copynumber: 2.3 Consensus size: 81
88536384 ATTACCGTTT
* * * *
88536394 TACCCTCAATTTACAGAATTA-TCATTTTACCCTCAATTTATAAAATTACTGTTTTACCCTCGAT
1 TACCCTCAGTTTATAAAATTACT-ATTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCGAT
* ***
88536458 TTACAGAATTACCATTT
65 TTACAAAATTACCAAAA
* *
88536475 TACCCTCAGTTTATAGAATTACTATTTTACCCTCAATTTATAGAATTACCGTTTTACCCTCGATT
1 TACCCTCAGTTTATAAAATTACTATTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCGATT
88536540 TACAAAATTACCAAAA
66 TACAAAATTACCAAAA
* *
88536556 TACCC-CTGGTTTGTAAAATTAC
1 TACCCTC-AGTTTATAAAATTAC
88536578 CAAAATACCC
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
80 1 0.01
81 88 0.98
82 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.39
Consensus pattern (81 bp):
TACCCTCAGTTTATAAAATTACTATTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCGATT
TACAAAATTACCAAAA
Found at i:88536587 original size:54 final size:53
Alignment explanation
Indices: 88536536--88536640 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 53
88536526 TTTTACCCTC
**
88536536 GATTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCAT
1 GATTTACAAAATTACCAAAATA-CCCTGGTAGGTAAAATTACCAAAATACCCAT
* * * * *
88536590 GGTTTGCAAAATTACTAAAATACCCTTGTAGGTAAAATTACCGAAATACCC
1 GATTTACAAAATTACCAAAATACCCTGGTAGGTAAAATTACCAAAATACCC
88536641 CTGTAGGGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 25 0.57
54 19 0.43
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (53 bp):
GATTTACAAAATTACCAAAATACCCTGGTAGGTAAAATTACCAAAATACCCAT
Found at i:88536636 original size:26 final size:26
Alignment explanation
Indices: 88536543--88536659 Score: 110
Period size: 27 Copynumber: 4.4 Consensus size: 26
88536533 CTCGATTTAC
**
88536543 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATA-CCCTGGTAGGT
** *
88536570 AAAATTACCAAAATACCCATGGTTTGC
1 AAAATTACCAAAATACCC-TGGTAGGT
* *
88536597 AAAATTACTAAAATACCCTTGTAGGT
1 AAAATTACCAAAATACCCTGGTAGGT
*
88536623 AAAATTACCGAAATACCCCT-GTAGGGT
1 AAAATTACCAAAATA-CCCTGGTA-GGT
*
88536650 AGAATTACCA
1 AAAATTACCA
88536660 TTTTGCCCTA
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
26 23 0.30
27 54 0.70
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTGGTAGGT
Found at i:88536650 original size:27 final size:27
Alignment explanation
Indices: 88536543--88536643 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 27
88536533 CTCGATTTAC
*
88536543 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTGGT
* * *
88536570 AAAATTACCAAAATACCCATGGTTTGC
1 AAAATTACCAAAATACCCCTGGTTGGT
* * *
88536597 AAAATTACTAAAATA-CCCTTGTAGGT
1 AAAATTACCAAAATACCCCTGGTTGGT
*
88536623 AAAATTACCGAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
88536644 TAGGGTAGAA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
26 19 0.31
27 43 0.69
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTGGT
Found at i:88543144 original size:13 final size:13
Alignment explanation
Indices: 88543126--88543150 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88543116 TATGTGATAT
88543126 GTGTGAAAATTTC
1 GTGTGAAAATTTC
88543139 GTGTGAAAATTT
1 GTGTGAAAATTT
88543151 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:88546327 original size:43 final size:43
Alignment explanation
Indices: 88546257--88546380 Score: 126
Period size: 43 Copynumber: 2.9 Consensus size: 43
88546247 ATACATATCG
* * * * * *
88546257 ATGCCACTATCCCAAACAGGGTTTTACACGAAATCACAATACG
1 ATGCCAATGTCCCAGACATGGTTTTACACGAAATCACAAGACA
* *
88546300 ATGCCAATGTCCTAGACAT-GTTCTTACAC-ATAATCTCAAGACA
1 ATGCCAATGTCCCAGACATGGTT-TTACACGA-AATCACAAGACA
* *
88546343 ATGCCAATGTCCCAGACATGGTTTTACATGTAATCACA
1 ATGCCAATGTCCCAGACATGGTTTTACACGAAATCACA
88546381 TCTCAATAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
42 4 0.06
43 58 0.89
44 3 0.05
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTTTTACACGAAATCACAAGACA
Found at i:88551378 original size:42 final size:42
Alignment explanation
Indices: 88551266--88551438 Score: 197
Period size: 43 Copynumber: 4.0 Consensus size: 42
88551256 GGATTTTCGA
* * * *
88551266 TATTTGATTTTGTGTAAGACCACATCTGGGACGTTGGCA-TC
1 TATTTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATTG
*
88551307 TATTTGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCATTG
1 TATTT--GATTT-CGTGTAAGACCACGTCTGGGACATTGGCATTG
* *
88551352 TATTTGATTTCGTGTAAGACC-CTGTCTGGGACAGTGGTATTG
1 TATTTGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATTG
* * *
88551394 ATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCATTG
1 -TATTTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATTG
88551437 TA
1 TA
88551439 CGACCTTTCT
Statistics
Matches: 112, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
41 5 0.04
42 30 0.27
43 45 0.40
44 26 0.23
45 6 0.05
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (42 bp):
TATTTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATTG
Found at i:88565258 original size:40 final size:40
Alignment explanation
Indices: 88565209--88565376 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
88565199 TCTTCGGAAT
* * *
88565209 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
88565248 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
88565288 TTAGCCCAGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
88565328 TTAGCCCGGATATAATC-ATTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
88565368 TTAGCCCGG
1 TTAGCCCGG
88565377 GTATCATTCA
Statistics
Matches: 104, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 3 0.03
40 100 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:88571394 original size:40 final size:40
Alignment explanation
Indices: 88571286--88571395 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
88571276 ATTGAATGAT
* * * * *
88571286 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
88571326 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
88571366 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
88571396 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:88571410 original size:40 final size:39
Alignment explanation
Indices: 88571286--88571435 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
88571276 ATTGAATGAT
* * * * * * *
88571286 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
88571326 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
88571366 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
88571406 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
88571436 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:88579425 original size:40 final size:40
Alignment explanation
Indices: 88579317--88579426 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
88579307 ATTGAATGAT
* * * * *
88579317 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
88579357 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
88579397 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
88579427 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:88579441 original size:40 final size:39
Alignment explanation
Indices: 88579317--88579466 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
88579307 ATTGAATGAT
* * * * * * *
88579317 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
88579357 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
88579397 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
88579437 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
88579467 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:88587156 original size:40 final size:40
Alignment explanation
Indices: 88587090--88587256 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
88587080 AAATTGAATG
* * *
88587090 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
88587129 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
88587169 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
88587209 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
88587249 ATATCCGG
1 ATATCCGG
88587257 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:88593453 original size:154 final size:154
Alignment explanation
Indices: 88593177--88593482 Score: 513
Period size: 154 Copynumber: 2.0 Consensus size: 154
88593167 AGAGCCTGCC
* ** *
88593177 AAAACAACACGGGCGTGCGACACGCCCGTGTGGAGGAACCATGGACGAACTTGTCAAATGTCCAT
1 AAAACAACACGGGCGTGCGACACGCCCGTGTCGAACAACCATGGACGAACTTGTCAAATGTCCAC
*
88593242 GGGTGTGGGGTAGAACACACGGGTGTGGGAGAAGCGAACGAAACTAGACACGGTCGTGCGACACG
66 GGGTGTGGGGTAGAACACACGGGTGTGGGAGAAGCGAACGAAACTAGACACGATCGTGCGACACG
88593307 ACCGTGGGAACCAACACGCCTGTT
131 ACCGTGGGAACCAACACGCCTGTT
* * * * *
88593331 AAAACAGCACGGGTGTGCGACACGCCCGTGTCGAACACCCGTGGTCGAACTTGTCAAATGTCCAC
1 AAAACAACACGGGCGTGCGACACGCCCGTGTCGAACAACCATGGACGAACTTGTCAAATGTCCAC
88593396 GGGTGTGGGGTAGAACACACGGGTGTGGGAGAAGCGAACGAAACTAGACACGATCGTGCGACACG
66 GGGTGTGGGGTAGAACACACGGGTGTGGGAGAAGCGAACGAAACTAGACACGATCGTGCGACACG
*
88593461 GCCGTGGGAACCAACACGCCTG
131 ACCGTGGGAACCAACACGCCTG
88593483 ATGCACACGG
Statistics
Matches: 141, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
154 141 1.00
ACGTcount: A:0.28, C:0.25, G:0.33, T:0.14
Consensus pattern (154 bp):
AAAACAACACGGGCGTGCGACACGCCCGTGTCGAACAACCATGGACGAACTTGTCAAATGTCCAC
GGGTGTGGGGTAGAACACACGGGTGTGGGAGAAGCGAACGAAACTAGACACGATCGTGCGACACG
ACCGTGGGAACCAACACGCCTGTT
Found at i:88595436 original size:13 final size:13
Alignment explanation
Indices: 88595418--88595442 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88595408 TTTTATAAAG
88595418 TTTATTTTTATTT
1 TTTATTTTTATTT
88595431 TTTATTTTTATT
1 TTTATTTTTATT
88595443 ATTAATTTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTATTTTTATTT
Found at i:88598049 original size:40 final size:40
Alignment explanation
Indices: 88598004--88598252 Score: 259
Period size: 40 Copynumber: 6.2 Consensus size: 40
88597994 CTTCGGAATA
* *
88598004 CCCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAG
* * * * *
88598044 CCCGGATAGAACGACTTGCACAAATGCCTTCGAGTATTAG
1 CCCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAG
*
88598084 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAG
* *
88598124 CCCTGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAG
* ** * *
88598164 CCCGGATGTGGTC-ACTAGCACG-ATGGCCTTCGGGTCTTAA
1 CCCGGATAT-AACAACTTGCACGAAT-GCCTTCGGGTCTTAG
* ** * ** * *
88598204 CCCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAG
1 CCCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAG
88598244 CCCGGATAT
1 CCCGGATAT
88598253 CATTCAATTG
Statistics
Matches: 175, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.01
40 170 0.97
41 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAG
Found at i:88601373 original size:40 final size:40
Alignment explanation
Indices: 88601336--88601520 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
88601326 GCTACTCGTT
* *
88601336 CAAACGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
88601376 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
88601416 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
88601455 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
88601496 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
88601521 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 78 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:88601439 original size:79 final size:80
Alignment explanation
Indices: 88601336--88601520 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 80
88601326 GCTACTCGTT
* * *
88601336 CAAACGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACT-
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTC-GGATCTT-ACTC
* *
88601398 CGGATTTAGTAAC-TCGCA
62 CGGATATAGTAACTTAGCA
* *
88601416 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAGTCCGG
1 -CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTACTCCGG
*
88601480 ATATAGTCACTTAGCA
65 ATATAGTAACTTAGCA
88601496 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
88601521 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
78 5 0.06
79 57 0.63
80 25 0.28
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTACTCCGGA
TATAGTAACTTAGCA
Found at i:88606347 original size:85 final size:85
Alignment explanation
Indices: 88606197--88606355 Score: 189
Period size: 85 Copynumber: 1.9 Consensus size: 85
88606187 ATCTGAGACA
* * * * *
88606197 TTGTGTAAGACCGTGTCTGGGACACAAGCCTCAATTGAGATTTACGTATAAAGCCATGTCTGGGA
1 TTGTGTAAGACCCTGTCTGGGACACAAGCATCAATTGAGATTTACATATAAAGCCACGTCCGGGA
88606262 CATTGGCATCGTATCTGATT
66 CATTGGCATCGTATCTGATT
* * *
88606282 TTGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGA-A-TTACATGT-AAGACCACGTCCG
1 TTGTGTAAGACCCTGTCTGGGACACAAGCATC-A-ATTGAGATTTACATATAAAG-CCACGTCCG
*
88606344 GGACGTTGGCAT
63 GGACATTGGCAT
88606356 TGTACTTGTT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
84 3 0.05
85 52 0.84
86 2 0.03
87 5 0.08
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (85 bp):
TTGTGTAAGACCCTGTCTGGGACACAAGCATCAATTGAGATTTACATATAAAGCCACGTCCGGGA
CATTGGCATCGTATCTGATT
Found at i:88618427 original size:25 final size:24
Alignment explanation
Indices: 88618371--88618430 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
88618361 ATTAGATCAT
* *
88618371 ATGAGCTTCCAATTAATGGCTCTC
1 ATGAGCTTCCCATTAATGGCTCAC
*
88618395 -TAGTGCTTCCCATTACATGGCTCAC
1 AT-GAGCTTCCCATTA-ATGGCTCAC
88618420 ATGAGCTTCCC
1 ATGAGCTTCCC
88618431 GTTATATAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
23 1 0.03
24 11 0.38
25 16 0.55
26 1 0.03
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.32
Consensus pattern (24 bp):
ATGAGCTTCCCATTAATGGCTCAC
Found at i:88618996 original size:39 final size:39
Alignment explanation
Indices: 88618942--88619019 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
88618932 TCAGAGCTAC
88618942 ATCACACTATCCCTCGGACTCTTCGGTATATATAGCAAA
1 ATCACACTATCCCTCGGACTCTTCGGTATATATAGCAAA
88618981 ATCACACTATCCCTCGGACTCTTCGGTATATATAGCAAA
1 ATCACACTATCCCTCGGACTCTTCGGTATATATAGCAAA
88619020 CTAAGTTTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (39 bp):
ATCACACTATCCCTCGGACTCTTCGGTATATATAGCAAA
Found at i:88619653 original size:56 final size:56
Alignment explanation
Indices: 88619549--88619654 Score: 131
Period size: 56 Copynumber: 1.9 Consensus size: 56
88619539 TTAAAATTAT
* * * ***
88619549 TCACATGGCCTAGCACACGAGCGTGTGACTTGGTCGTGTAATGTAAGTCAATTTGC
1 TCACACGGCCTAGCACACGAGCGTGTGACTTGGCCATGTAACCCAAGTCAATTTGC
* * *
88619605 TCACACGGCCTAGCACACGGGCGTGTGGCTTGGCCATGTGACCCAAGTCA
1 TCACACGGCCTAGCACACGAGCGTGTGACTTGGCCATGTAACCCAAGTCA
88619655 GAGAGTTACA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
56 41 1.00
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (56 bp):
TCACACGGCCTAGCACACGAGCGTGTGACTTGGCCATGTAACCCAAGTCAATTTGC
Found at i:88621938 original size:54 final size:53
Alignment explanation
Indices: 88621877--88621991 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 53
88621867 TGTCAGGCTA
* *
88621877 TGTAACTCTCGGAATAGCCTCAGACGCTCATGTGT-CAGGCCGTGTACTAGGCCG
1 TGTAACTCTCGAAATAGCCTCACAC-C-CATGTGTGCAGGCCGTGTACTAGGCCG
* * * * *
88621931 TGTAACTCTCGAAATGGCCTCACACCCCTGTGTGGTAGGTCGTGTGCTAGGCCG
1 TGTAACTCTCGAAATAGCCTCACACCCATGTGT-GCAGGCCGTGTACTAGGCCG
88621985 TGTAACT
1 TGTAACT
88621992 ACCTGACTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
52 6 0.12
53 1 0.02
54 45 0.87
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.26
Consensus pattern (53 bp):
TGTAACTCTCGAAATAGCCTCACACCCATGTGTGCAGGCCGTGTACTAGGCCG
Found at i:88624796 original size:20 final size:20
Alignment explanation
Indices: 88624770--88624863 Score: 77
Period size: 20 Copynumber: 4.6 Consensus size: 20
88624760 GACTTAGACA
*
88624770 TTGGTGCCCTTGCT-TGCAC
1 TTGGTGCCCCTGCTATGCAC
88624789 TGTGGTGCCCCTGCT-TGCAC
1 T-TGGTGCCCCTGCTATGCAC
88624809 TTAGGTGCCCCTG-TATGCAC
1 TT-GGTGCCCCTGCTATGCAC
* * * *
88624829 TTCTGTGCCCTTGTTCTGCAC
1 TT-GGTGCCCCTGCTATGCAC
88624850 TATGGTGCTCCCTG
1 T-TGGTGC-CCCTG
88624864 ATGTGATCAC
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
19 3 0.05
20 43 0.69
21 11 0.18
22 5 0.08
ACGTcount: A:0.07, C:0.32, G:0.26, T:0.35
Consensus pattern (20 bp):
TTGGTGCCCCTGCTATGCAC
Found at i:88625089 original size:40 final size:40
Alignment explanation
Indices: 88625034--88625113 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
88625024 TGACAAACTC
*
88625034 ACCCATTTCTTGTGAATTATTATGTTAGGGTATAGTATTA
1 ACCCATTTATTGTGAATTATTATGTTAGGGTATAGTATTA
*
88625074 ACCCATTTATTGTGAATTATTATGTTAGGTTATAGTATTA
1 ACCCATTTATTGTGAATTATTATGTTAGGGTATAGTATTA
88625114 TGTTAATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (40 bp):
ACCCATTTATTGTGAATTATTATGTTAGGGTATAGTATTA
Found at i:88625526 original size:17 final size:18
Alignment explanation
Indices: 88625496--88625529 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
88625486 AACTTGAATC
*
88625496 AAGTAATAGTTTGAATAG
1 AAGTAATAGCTTGAATAG
88625514 AAGTAAT-GCTTGAATA
1 AAGTAATAGCTTGAATA
88625530 AGATCTTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.32
Consensus pattern (18 bp):
AAGTAATAGCTTGAATAG
Found at i:88627406 original size:41 final size:41
Alignment explanation
Indices: 88627361--88627478 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
88627351 TGAAAGATAA
88627361 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
88627402 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
88627432 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
88627473 ATGTAG
1 ATGTAG
88627479 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:88627417 original size:71 final size:71
Alignment explanation
Indices: 88627329--88627492 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
88627319 GAGATGTATC
88627329 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
88627394 AGGACA
66 AGGACA
88627400 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
88627465 AGGACA
66 AGGACA
88627471 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
88627493 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:88634979 original size:41 final size:41
Alignment explanation
Indices: 88634934--88635051 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
88634924 TGAAAGATAA
88634934 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
88634975 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
88635005 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
88635046 ATGTAG
1 ATGTAG
88635052 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:88634990 original size:71 final size:71
Alignment explanation
Indices: 88634902--88635065 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
88634892 GAGATGTATC
88634902 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
88634967 AGGACA
66 AGGACA
88634973 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
88635038 AGGACA
66 AGGACA
88635044 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
88635066 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:88636410 original size:23 final size:23
Alignment explanation
Indices: 88636379--88636593 Score: 177
Period size: 23 Copynumber: 9.4 Consensus size: 23
88636369 GGGTGTTACA
*
88636379 AGTAAGCTCTAATGAGCTAAAAC
1 AGTAAGCTCTAATGAGCTGAAAC
* * *
88636402 GGTAAGCTCTATTGAGTTG-AAC
1 AGTAAGCTCTAATGAGCTGAAAC
* *
88636424 AGTAAGCTCT-ATCGAGATGAATC
1 AGTAAGCTCTAAT-GAGCTGAAAC
* *
88636447 AGTAAGCTCCAATAAGCTGAAAC
1 AGTAAGCTCTAATGAGCTGAAAC
***
88636470 AGTAAGCTCTTGCGAGCT-AAATC
1 AGTAAGCTCTAATGAGCTGAAA-C
* * *
88636493 GGTAAGCTCTAATAAACTGAAAC
1 AGTAAGCTCTAATGAGCTGAAAC
* * *
88636516 AGTAAGCTCTTACGAGCTGAATC
1 AGTAAGCTCTAATGAGCTGAAAC
* *
88636539 AGTAAGCTCTAATGATCTGAAAT
1 AGTAAGCTCTAATGAGCTGAAAC
***
88636562 AGTAAGCTCTTGCGAGCT-AAATC
1 AGTAAGCTCTAATGAGCTGAAA-C
88636585 AGTAAGCTC
1 AGTAAGCTC
88636594 ATACGAGCTA
Statistics
Matches: 147, Mismatches: 39, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
21 1 0.01
22 23 0.16
23 118 0.80
24 5 0.03
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (23 bp):
AGTAAGCTCTAATGAGCTGAAAC
Found at i:88636479 original size:46 final size:46
Alignment explanation
Indices: 88636421--88636593 Score: 240
Period size: 46 Copynumber: 3.8 Consensus size: 46
88636411 TATTGAGTTG
* * * *
88636421 AACAGTAAGCTCTAT-CGAGATGAATCAGTAAGCTCCAATAAGCTGA
1 AACAGTAAGCTCT-TGCGAGCTAAATCAGTAAGCTCTAATAAACTGA
*
88636467 AACAGTAAGCTCTTGCGAGCTAAATCGGTAAGCTCTAATAAACTGA
1 AACAGTAAGCTCTTGCGAGCTAAATCAGTAAGCTCTAATAAACTGA
* * * *
88636513 AACAGTAAGCTCTTACGAGCTGAATCAGTAAGCTCTAATGATCTGA
1 AACAGTAAGCTCTTGCGAGCTAAATCAGTAAGCTCTAATAAACTGA
*
88636559 AATAGTAAGCTCTTGCGAGCTAAATCAGTAAGCTC
1 AACAGTAAGCTCTTGCGAGCTAAATCAGTAAGCTC
88636594 ATACGAGCTA
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 112 0.99
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (46 bp):
AACAGTAAGCTCTTGCGAGCTAAATCAGTAAGCTCTAATAAACTGA
Found at i:88636559 original size:92 final size:91
Alignment explanation
Indices: 88636392--88636593 Score: 280
Period size: 92 Copynumber: 2.2 Consensus size: 91
88636382 AAGCTCTAAT
* * * **
88636392 GAGCTAAAACGGTAAGCTCTATTGAGTTGAACAGTAAGCTCTATCGAGATGAATCAGTAAGCTCC
1 GAGCTAAATCGGTAAGCTCTAATAAACTGAACAGTAAGCTCTATCGAGATGAATCAGTAAGCTCC
88636457 AATAAGCTGAAACAGTAAGCTCTTGC
66 AATAAGCTGAAACAGTAAGCTCTTGC
*
88636483 GAGCTAAATCGGTAAGCTCTAATAAACTGAAACAGTAAGCTCT-TACGAGCTGAATCAGTAAGCT
1 GAGCTAAATCGGTAAGCTCTAATAAACTG-AACAGTAAGCTCTAT-CGAGATGAATCAGTAAGCT
* * * *
88636547 CTAATGATCTGAAATAGTAAGCTCTTGC
64 CCAATAAGCTGAAACAGTAAGCTCTTGC
*
88636575 GAGCTAAATCAGTAAGCTC
1 GAGCTAAATCGGTAAGCTC
88636594 ATACGAGCTA
Statistics
Matches: 98, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
91 25 0.26
92 73 0.74
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (91 bp):
GAGCTAAATCGGTAAGCTCTAATAAACTGAACAGTAAGCTCTATCGAGATGAATCAGTAAGCTCC
AATAAGCTGAAACAGTAAGCTCTTGC
Found at i:88639336 original size:43 final size:43
Alignment explanation
Indices: 88639186--88639358 Score: 149
Period size: 43 Copynumber: 4.0 Consensus size: 43
88639176 ATAGGATTCC
* * *
88639186 GATATGTGATTTCGTGTAAGACCACGTCTGGGAC-GTTGGCATT
1 GATATTTGATTACATGTAAGACCACGTCTGGGACAG-TGGCATT
* * * * *
88639229 GAT-TTGAGATTTACATGTAAGACCATGTTTGGAACA-TCGGCATC
1 GATATT-TGA-TTACATGTAAGACCACGTCTGGGACAGT-GGCATT
* * *
88639273 G-TATATGATTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATT
1 GATATTTGATTACATGTAAGACCAC-GTCTGGGACAGTGGCATT
* *
88639315 GATATTTGATTACATGTAAGACCACGTCTGAGACATTGGCATT
1 GATATTTGATTACATGTAAGACCACGTCTGGGACAGTGGCATT
88639358 G
1 G
88639359 TTTGAGCTTT
Statistics
Matches: 100, Mismatches: 21, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
42 27 0.27
43 45 0.45
44 28 0.28
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
GATATTTGATTACATGTAAGACCACGTCTGGGACAGTGGCATT
Found at i:88640744 original size:18 final size:18
Alignment explanation
Indices: 88640716--88640757 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
88640706 ATGTTAAAAG
88640716 TATAG-TTGGTTATATTA
1 TATAGTTTGGTTATATTA
*
88640733 TATAGTTTGGTTATGTTA
1 TATAGTTTGGTTATATTA
88640751 TATAGTT
1 TATAGTT
88640758 ACCTAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (18 bp):
TATAGTTTGGTTATATTA
Found at i:88646395 original size:43 final size:43
Alignment explanation
Indices: 88646243--88646414 Score: 172
Period size: 43 Copynumber: 4.0 Consensus size: 43
88646233 CATAGGATTC
* * * *
88646243 CGATATGTGATTTCGTGTAAGACCAC-GTCTGGGACGTTGGTAT
1 CGATATTTGATTACATGTAAGACC-CTGTCTGGGACGTTGGCAT
* * *
88646286 CGAT-TTTAGATTTACATGTAAAACCATGTCTGGGACATTGGCAT
1 CGATATTT-GA-TTACATGTAAGACCCTGTCTGGGACGTTGGCAT
* * * *
88646330 C-ATATATGATTTCGTGTAAGACCCTGTTTGGGACAG-TGGCAT
1 CGATATTTGATTACATGTAAGACCCTGTCTGGGAC-GTTGGCAT
*
88646372 CGATATTTGATTACATGTAAGACCCCGTCTGGGACGTTGGCAT
1 CGATATTTGATTACATGTAAGACCCTGTCTGGGACGTTGGCAT
88646415 TGTACAAGCT
Statistics
Matches: 103, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
42 30 0.29
43 44 0.43
44 29 0.28
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
CGATATTTGATTACATGTAAGACCCTGTCTGGGACGTTGGCAT
Found at i:88647444 original size:24 final size:25
Alignment explanation
Indices: 88647417--88647467 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
88647407 GCCTAGCCTC
88647417 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
**
88647441 TTTTGGTAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
88647466 TT
1 TT
88647468 CCCCACTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:88647552 original size:11 final size:10
Alignment explanation
Indices: 88647536--88647572 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
88647526 CATCTCATAA
88647536 CATATCATGT
1 CATATCATGT
88647546 GCATATCATGT
1 -CATATCATGT
88647557 CATATCATGT
1 CATATCATGT
88647567 -ATATCA
1 CATATCA
88647573 AAATCTCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 6 0.23
10 10 0.38
11 10 0.38
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (10 bp):
CATATCATGT
Found at i:88647560 original size:21 final size:21
Alignment explanation
Indices: 88647516--88647566 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
88647506 TATAATGAGT
* *
88647516 ATATCGTGTGCATCTCATAAC
1 ATATCATGTGCATATCATAAC
**
88647537 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATAAC
88647558 ATATCATGT
1 ATATCATGT
88647567 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (21 bp):
ATATCATGTGCATATCATAAC
Found at i:88647649 original size:25 final size:25
Alignment explanation
Indices: 88647603--88647651 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
88647593 AGAATTTAAC
* * * *
88647603 CCTAGGGGTATAATAGTTATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
88647628 CCTAGGGGCAAAACAGTCATTTTT
1 CCTAGGGGCAAAACAGTCATTTTT
88647652 CATATTTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:88648783 original size:351 final size:352
Alignment explanation
Indices: 88647885--88649290 Score: 2573
Period size: 351 Copynumber: 4.0 Consensus size: 352
88647875 CTTTTCCAAG
* * *
88647885 TTCCATTTTCTATCTATTTTACCCAAATGGGCCCAGAAGCCCATTGGGCCCAATTTCAGCCCATT
1 TTCCATTTTCTATCCATTTTACCCAAATGGGCCCGGAAGCCCATTGGGCCCAATTCCAGCCCATT
88647950 GAGGCCCAACTTACCATCGTGCACAAAATTGTGCTCTTACCTGTTTCATCGATCCAAACACCGAT
66 GAGGCCCAACTTACCATCGTGCACAAAATTGTGCTCTTACCTGTTTCATCGATCCAAACACCGAT
* *
88648015 CATATCGTACTTATCACATCTAAAACCACATGCAAAATCTCACGTTCCCAAAATGCCGGAATTTT
131 CATATCGTACTTATCGCATCTAAAACCACATGCAAAATCTCACGTTCCCAAAATGCCAGAATTTT
*
88648080 AGTATTTTGGCTTTTCAGCGAATATTAGCCTAAGCTACTACGAGGGTTGTTACACACCTGTTTTG
196 AGTATTTCGGCTTTTCAGCGAATATTAGCCTAAGCTACTACGAGGGTTGTTACACACCTGTTTTG
*
88648145 TGATGTTCGCCAACAAAGTCTCCCACGACAACCTACAATTAATCACCACCATTCTTAGTTTACAG
261 TGATGTTCGCCAACAAAGTCTCCCACGAAAACCTACAATTAATCACCACCATTCTTAGTTTACAG
88648210 TTCATGCTAATCAAACCCAAAGTCCAC
326 TTCATGCTAATCAAACCCAAAGTCCAC
*
88648237 TTCCATTTTCTATCTATTTTACCCAAATGGGCCCGGAAGCCCATTGGGCCCAATTCCAGCCCATT
1 TTCCATTTTCTATCCATTTTACCCAAATGGGCCCGGAAGCCCATTGGGCCCAATTCCAGCCCATT
*
88648302 GAGGCCCAACTTACCATCGTGCACAAAATTGTGCTCTTACCTGTTTCATCGATCCAAACACTGAT
66 GAGGCCCAACTTACCATCGTGCACAAAATTGTGCTCTTACCTGTTTCATCGATCCAAACACCGAT
*
88648367 CATATCGTACTTATCGCATTTAAAACCACATGCAAAATCTCACGTTCCCAAAATGCCAGAATTTT
131 CATATCGTACTTATCGCATCTAAAACCACATGCAAAATCTCACGTTCCCAAAATGCCAGAATTTT
*
88648432 AGTATTTCGGCTTTTCAGCGAATATTAGCCTAAGCTACTACAAGGGTTGTTACACACCTGTTTTG
196 AGTATTTCGGCTTTTCAGCGAATATTAGCCTAAGCTACTACGAGGGTTGTTACACACCTGTTTTG
88648497 TGATGTTCGCCAACAAAGTCTCCCACGAAAACCTACAATTAATCACCACCATTCTTAGTTTACAG
261 TGATGTTCGCCAACAAAGTCTCCCACGAAAACCTACAATTAATCACCACCATTCTTAGTTTACAG
88648562 TTCATGCTAATCAAACCCAAAGTCCAC
326 TTCATGCTAATCAAACCCAAAGTCCAC
* *
88648589 TTCCA-TTTCTACCCATTTTACCCAAATGGGCCCGGAAGCCCATTGGGCCTAATTCCAGCCCATT
1 TTCCATTTTCTATCCATTTTACCCAAATGGGCCCGGAAGCCCATTGGGCCCAATTCCAGCCCATT
*
88648653 GAGGCCCAGCTTACCATCGTGCACAAAATTGTGCTCTTACCTGTTTCATCGATCCAAACACCGAT
66 GAGGCCCAACTTACCATCGTGCACAAAATTGTGCTCTTACCTGTTTCATCGATCCAAACACCGAT
* **
88648718 CATATCGTACTTACCGCATCTAAAACCACATGCAAAATCTCACGTTCCTGAAATGCCAGAATTTT
131 CATATCGTACTTATCGCATCTAAAACCACATGCAAAATCTCACGTTCCCAAAATGCCAGAATTTT
* *
88648783 AGTATTCCGGCTTTTCAGCGAATATTAGCCTAAGCTACTACGAGGGTTGTTACACATCTGTTTTG
196 AGTATTTCGGCTTTTCAGCGAATATTAGCCTAAGCTACTACGAGGGTTGTTACACACCTGTTTTG
*
88648848 TGATGTTCGCCAACAAAGTCTCCCACAAAAACCTACAATTAATCACCACCATTCTTAGTTTACAG
261 TGATGTTCGCCAACAAAGTCTCCCACGAAAACCTACAATTAATCACCACCATTCTTAGTTTACAG
88648913 TTCATGCTAATCAAACCCAAAGTCCAC
326 TTCATGCTAATCAAACCCAAAGTCCAC
88648940 TTCCATTTTCTATCCATTTTACCCAAATGGGCCCGGAAGCCCATTGGGCCC-ATTCCAGCCCATT
1 TTCCATTTTCTATCCATTTTACCCAAATGGGCCCGGAAGCCCATTGGGCCCAATTCCAGCCCATT
88649004 GAGGCCCAACTTACCATCGTGCACAAAATTGTGCTCTTACCTGTTTCATCGATCCAAACACCGAT
66 GAGGCCCAACTTACCATCGTGCACAAAATTGTGCTCTTACCTGTTTCATCGATCCAAACACCGAT
* *
88649069 CATATCGTACTTATCGCATCTAAAACCACATGCAAAATCTCACATTCCCGAAATGCCAGAATTTT
131 CATATCGTACTTATCGCATCTAAAACCACATGCAAAATCTCACGTTCCCAAAATGCCAGAATTTT
*
88649134 AGTATTTCGGCTTTTCAGCGAATATTAGCCTAAGCTACTACGAGGGTTGTTACACACCTATTTTG
196 AGTATTTCGGCTTTTCAGCGAATATTAGCCTAAGCTACTACGAGGGTTGTTACACACCTGTTTTG
* *
88649199 TGATGTTCGCCAACAAAGTCTCCCACGAAAACCTACAAATAATCACCACCATTCTTAGTTTATAG
261 TGATGTTCGCCAACAAAGTCTCCCACGAAAACCTACAATTAATCACCACCATTCTTAGTTTACAG
88649264 TTCATGCTAATCAAACCCAAAGTCCAC
326 TTCATGCTAATCAAACCCAAAGTCCAC
88649291 CTACCATAGT
Statistics
Matches: 1019, Mismatches: 34, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
351 628 0.62
352 391 0.38
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (352 bp):
TTCCATTTTCTATCCATTTTACCCAAATGGGCCCGGAAGCCCATTGGGCCCAATTCCAGCCCATT
GAGGCCCAACTTACCATCGTGCACAAAATTGTGCTCTTACCTGTTTCATCGATCCAAACACCGAT
CATATCGTACTTATCGCATCTAAAACCACATGCAAAATCTCACGTTCCCAAAATGCCAGAATTTT
AGTATTTCGGCTTTTCAGCGAATATTAGCCTAAGCTACTACGAGGGTTGTTACACACCTGTTTTG
TGATGTTCGCCAACAAAGTCTCCCACGAAAACCTACAATTAATCACCACCATTCTTAGTTTACAG
TTCATGCTAATCAAACCCAAAGTCCAC
Found at i:88649701 original size:22 final size:22
Alignment explanation
Indices: 88649673--88649715 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
88649663 CGGCAAGGGT
88649673 GATGAAAAGAAAGGAAGTAGTA
1 GATGAAAAGAAAGGAAGTAGTA
* *
88649695 GATGAAATGAAAGGGAGTAGT
1 GATGAAAAGAAAGGAAGTAGT
88649716 GGTTTGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.35, T:0.16
Consensus pattern (22 bp):
GATGAAAAGAAAGGAAGTAGTA
Found at i:88650339 original size:20 final size:20
Alignment explanation
Indices: 88650316--88650354 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
88650306 CACAACCAAA
* *
88650316 TACCAAATTTTTAAAAATTT
1 TACCAAATTCTCAAAAATTT
88650336 TACCAAATTCTCAAAAATT
1 TACCAAATTCTCAAAAATT
88650355 ATGAAAATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (20 bp):
TACCAAATTCTCAAAAATTT
Found at i:88656455 original size:21 final size:21
Alignment explanation
Indices: 88656430--88656480 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
88656420 TATAATGAGT
*
88656430 ATATCATGTGCATCTCATAAC
1 ATATCATGTGCATATCATAAC
**
88656451 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATAAC
88656472 ATATCATGT
1 ATATCATGT
88656481 ATATCAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATCATGTGCATATCATAAC
Found at i:88656545 original size:25 final size:25
Alignment explanation
Indices: 88656517--88656565 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
88656507 AGAATTTAAC
* * *
88656517 CCTAGGGGTATAATAGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
88656542 CCTAGGGGCAAAACAGTCATTTTT
1 CCTAGGGGCAAAACAGTCATTTTT
88656566 CATATTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:88657559 original size:22 final size:22
Alignment explanation
Indices: 88657531--88657573 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
88657521 CGGCAAGGGT
88657531 GATGAAAAAAAAGGAAGTAGTA
1 GATGAAAAAAAAGGAAGTAGTA
* *
88657553 GATGAAAAGAAAGGGAGTAGT
1 GATGAAAAAAAAGGAAGTAGT
88657574 GGTTTGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.33, T:0.14
Consensus pattern (22 bp):
GATGAAAAAAAAGGAAGTAGTA
Found at i:88658198 original size:20 final size:20
Alignment explanation
Indices: 88658175--88658213 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
88658165 CACAACCAAA
* *
88658175 TACCAAATTTTTAAAAATTT
1 TACCAAATTCTCAAAAATTT
88658195 TACCAAATTCTCAAAAATT
1 TACCAAATTCTCAAAAATT
88658214 ATGAAAATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (20 bp):
TACCAAATTCTCAAAAATTT
Found at i:88659167 original size:32 final size:32
Alignment explanation
Indices: 88659122--88659216 Score: 127
Period size: 32 Copynumber: 3.0 Consensus size: 32
88659112 CTCTAGGTCT
* *
88659122 TCAGTAGCGGTATTATAATTGGCACAAAGCCA
1 TCAGTAACGGTATTATAATTGGCACATAGCCA
* **
88659154 TCAGTAACTGTATTATGTTTGGCACATAGCCA
1 TCAGTAACGGTATTATAATTGGCACATAGCCA
* *
88659186 TCAGTGACGGTAATATAATTGGCACATAGCC
1 TCAGTAACGGTATTATAATTGGCACATAGCC
88659217 TTGGGTAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (32 bp):
TCAGTAACGGTATTATAATTGGCACATAGCCA
Found at i:88659678 original size:27 final size:27
Alignment explanation
Indices: 88659648--88659723 Score: 143
Period size: 27 Copynumber: 2.8 Consensus size: 27
88659638 CAAAACAGTC
88659648 ATTTTACCCTACAAGGGTATTTCGATA
1 ATTTTACCCTACAAGGGTATTTCGATA
88659675 ATTTTACCCTACAAGGGTATTTCGATA
1 ATTTTACCCTACAAGGGTATTTCGATA
*
88659702 ATTTTACACTACAAGGGTATTT
1 ATTTTACCCTACAAGGGTATTT
88659724 TAGTAATTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.38
Consensus pattern (27 bp):
ATTTTACCCTACAAGGGTATTTCGATA
Found at i:88659730 original size:27 final size:27
Alignment explanation
Indices: 88659648--88659736 Score: 135
Period size: 27 Copynumber: 3.3 Consensus size: 27
88659638 CAAAACAGTC
*
88659648 ATTTTACCCTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
*
88659675 ATTTTACCCTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
*
88659702 ATTTTACACTACAAGGGTATTT-TAGTA
1 ATTTTACACTACAAGGGTATTTCGA-TA
88659729 ATTTTACA
1 ATTTTACA
88659737 AGTTGGGGGT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
26 1 0.02
27 58 0.98
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:88659731 original size:54 final size:54
Alignment explanation
Indices: 88659648--88659817 Score: 168
Period size: 54 Copynumber: 3.1 Consensus size: 54
88659638 CAAAACAGTC
* * *
88659648 ATTTTACCCTACAAGGGTA-TTTCGATAATTTTAC-CCTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTTAG-TAATTTTACAACT-CAAGGGTATTTCGATA
* ***
88659702 ATTTTACACTACAAGGGTATTTTAGTAATTTTACAAGTTGGGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTTAGTAATTTTACAACTCAAGGGTATTTCGATA
* * * * *
88659756 ATTTCACA-AATCGAGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTC-AGTA
1 ATTTTACACTA-CAAGGGTATTTTAGTAATTTTACAACTCAAGGGTATTTCGA-TA
88659810 ATTTTACA
1 ATTTTACA
88659818 AGTCAAGAAT
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
53 2 0.02
54 91 0.93
55 5 0.05
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (54 bp):
ATTTTACACTACAAGGGTATTTTAGTAATTTTACAACTCAAGGGTATTTCGATA
Found at i:88659746 original size:27 final size:27
Alignment explanation
Indices: 88659716--88659818 Score: 127
Period size: 27 Copynumber: 3.8 Consensus size: 27
88659706 TACACTACAA
* *
88659716 GGGTATTTTAGTAATTTTACAAGTTGG
1 GGGTATTTTAGTAATTTTACAAATCGG
* * *
88659743 GGGTA-TTTCGATAATTTCACAAATCGA
1 GGGTATTTTAG-TAATTTTACAAATCGG
*
88659770 GGGTATTTTAGTAATTTTACAAATCAG
1 GGGTATTTTAGTAATTTTACAAATCGG
*
88659797 GGGTATTTCAGTAATTTTACAA
1 GGGTATTTTAGTAATTTTACAA
88659819 GTCAAGAATC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 4 0.06
27 56 0.88
28 4 0.06
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAATCGG
Found at i:88660299 original size:17 final size:18
Alignment explanation
Indices: 88660273--88660306 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
88660263 TTTATCTGTG
88660273 TGGGCACACA-AGCCCAT
1 TGGGCACACATAGCCCAT
*
88660290 TGGGCCCACATAGCCCA
1 TGGGCACACATAGCCCA
88660307 GTCTGGCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.38, G:0.24, T:0.12
Consensus pattern (18 bp):
TGGGCACACATAGCCCAT
Found at i:88664118 original size:20 final size:21
Alignment explanation
Indices: 88664090--88664128 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
88664080 TATTACTTTA
88664090 TTTCAG-AAAAAAATGTTAAG
1 TTTCAGAAAAAAAATGTTAAG
*
88664110 TTTCGGAAAAAAAATGTTA
1 TTTCAGAAAAAAAATGTTA
88664129 TTACTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (21 bp):
TTTCAGAAAAAAAATGTTAAG
Found at i:88665272 original size:26 final size:26
Alignment explanation
Indices: 88665213--88665311 Score: 146
Period size: 26 Copynumber: 3.8 Consensus size: 26
88665203 CTCTTTTAAT
* *
88665213 AACTGGGGCAAAAGCCCTTTCGGG-A
1 AACTGGGGCATAAGCCCTTTTGGGTA
*
88665238 AACTGGGGCATAAGACCTTTTGGGTA
1 AACTGGGGCATAAGCCCTTTTGGGTA
* *
88665264 AACTAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTGGGTA
88665290 AACTGGGGCATAAGCCCTTTTG
1 AACTGGGGCATAAGCCCTTTTG
88665312 CACTTCCTCC
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 21 0.32
26 44 0.68
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTGGGTA
Done.